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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
463
ChIP-seq
27
total RNA-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
ATAC-seq
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
463
DNA binding
29
Transcription
3
3D chromatin structure
3
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
356
transcription factor
89
recombinant protein
76
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
42
August, 2021
28
December, 2018
28
October, 2019
23
January, 2019
6
March, 2020
5
February, 2023
4
February, 2021
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
465
bam
427
fastq
416
bigWig
377
bed narrowPeak
354
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
32
tsv
14
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
514
Homo sapiens
Biosample type
2629
tissue
680
primary cell
517
cell line
370
in vitro differentiated cells
9
stem cell
Organ
401
liver
92
pancreas
epithelium
66
artery
66
blood vessel
66
heart
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
510
AMP
5
T1D
2
community
Genome assembly (visualization)
414
hg19
351
GRCh38
Lab
476
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
CRISPR RNA-seq
organ_slims!
vasculature
epithelium
BIOSAMPLE
ASSAY
517 results
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Clear Filters
ChIP-seq
total RNA-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
ATAC-seq
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
2
1
1
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
EndoC_BH1
3
2
RCC 7860 HIF1a re-expression
4
1
RCC 7860 vector
3
1
1
RCC 7860 HIF2a over-expression
3
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
iPSC derived cell line
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
Synthesized DNA
1
fibroblast cell line
1
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